Protein Info for GFF1660 in Sphingobium sp. HT1-2
Annotation: NADP-dependent malic enzyme (EC 1.1.1.40)
These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.
Protein Families and Features
Best Hits
Swiss-Prot: 57% identical to MAO1_RHIME: NAD-dependent malic enzyme (dme) from Rhizobium meliloti (strain 1021)
KEGG orthology group: K00029, malate dehydrogenase (oxaloacetate-decarboxylating)(NADP+) [EC: 1.1.1.40] (inferred from 89% identity to sch:Sphch_0642)Predicted SEED Role
"NADP-dependent malic enzyme (EC 1.1.1.40)" in subsystem Pyruvate metabolism I: anaplerotic reactions, PEP (EC 1.1.1.40)
MetaCyc Pathways
- protocatechuate degradation I (meta-cleavage pathway) (8/8 steps found)
- superpathway of vanillin and vanillate degradation (9/10 steps found)
- methylgallate degradation (6/6 steps found)
- gluconeogenesis I (11/13 steps found)
- C4 photosynthetic carbon assimilation cycle, NADP-ME type (5/7 steps found)
- syringate degradation (8/12 steps found)
- C4 photosynthetic carbon assimilation cycle, PEPCK type (9/14 steps found)
KEGG Metabolic Maps
- Biosynthesis of alkaloids derived from histidine and purine
- Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
- Biosynthesis of alkaloids derived from shikimate pathway
- Biosynthesis of alkaloids derived from terpenoid and polyketide
- Biosynthesis of terpenoids and steroids
- Carbon fixation in photosynthetic organisms
- Pyruvate metabolism
Isozymes
Compare fitness of predicted isozymes for: 1.1.1.40
Use Curated BLAST to search for 1.1.1.40
Sequence Analysis Tools
PaperBLAST (search for papers about homologs of this protein)
Search CDD (the Conserved Domains Database, which includes COG and superfam)
Compare to protein structures
Predict protein localization: PSORTb (Gram-negative bacteria)
Predict transmembrane helices and signal peptides: Phobius
Check the current SEED with FIGfam search
Find homologs in fast.genomics or the ENIGMA genome browser
Find the best match in UniProt
Protein Sequence (755 amino acids)
>GFF1660 NADP-dependent malic enzyme (EC 1.1.1.40) (Sphingobium sp. HT1-2) MDDNTRRAALDYHRLPQPGKLAIEPTKRMVNQRDLALAYSPGVAAPCEEIAADPAKALDY TARGNLVAVISNGTAVLGLGAIGALASKPVMEGKAVLFKKFADIDVFDIEVDTTDTDKFV EAVALLEPTFGGINLEDIKAPECFEIERRLKERMNIPVFHDDQHGTAIVVAAAVRNALVL QGKTLADAKLVTSGAGAAALACVDLLVSMGLPIDNVTMTDKDGVIHSGREGMLPNMARYA RDTNARTLPDVLPGANLFLGLSAPGVLKPEWLPLMAPNPLIFALANPEPEIRPEAAREVR PDAIIATGRSDYPNQVNNVLCFPYIFRGALDCGATQINEAMKVAAADAIAALARMPAHDS VAQAYGGRKLVFGADYIIPTPFDPRLIGEIAGAVAKAAMDSGVATKTLDLEEYKRALSHQ NTRSGQLMLPVFHAARGSQCRIVYGEGEDERVLRAIQDGLDEGIVKPTIVARRRLLEQKL ADMGLSFQLDRDVEVIDPETDHDIMRELVEAYRAIAARKGVPPDEILRHVYRRPTVTAAM LLRTGRVDAALVGGRSEYWGQVEHVLRIIDRAPNHSRIYALSGLILDAGALFITDTHMVP DPTPDQIAEMTLLASTELQHFGLKPRVALLSHSNFGASNSPSARKMRAALDLVRQAAPEL AVDGEMHADAALSQALRERLIPDSRFEGPANLLVMPNLDAANITLTALGASSSSPTVGPM LIGTAQPIHVLTPGVTARGILNLTAIAAAEVAREG